Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,022,885	G→A	*90* (TAG→TAA)	fliQ →	flagellar biosynthesis protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,022,885	0	G	A	100.0%	192.0 / NA	59	*90* (TAG→TAA)	fliQ	flagellar biosynthesis protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (33/26);  total (33/26)

TGACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAGCCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGGTAA  >  NC_000913/2022755‑2023019                                                                                                                                   |                                                                                                                                       tGACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTa                                                                                                                                >  1:450902/1‑139 (MQ=255)  gACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTAt                                                                                                                               >  2:602481/1‑139 (MQ=255)                   cGAAAATCATCGCCGAATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCGGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGcc                                                                                                              >  2:855924/1‑138 (MQ=255)                     aaaaTCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGaa                                                                                                            <  2:234135/139‑1 (MQ=255)                           atcGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                      <  2:95610/139‑1 (MQ=255)                                  tATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAAc                                                                                                           <  1:563687/127‑1 (MQ=255)                                  tATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAAc                                                                                                           >  2:563687/1‑127 (MQ=255)                                      tATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGtt                                                                                           <  1:367368/139‑1 (MQ=255)                                               tattattGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTAc                                                                                                                                  <  1:766412/91‑1 (MQ=255)                                               tattattGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTAc                                                                                                                                  >  2:766412/1‑91 (MQ=255)                                               tattattGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 <  1:735350/124‑1 (MQ=255)                                               tattattGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 >  2:735350/1‑124 (MQ=255)                                                      gCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGTTATCCTGGTTaa                                                                                         <  2:896990/125‑1 (MQ=255)                                                      gCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTaa                                                                                         >  1:896990/1‑125 (MQ=255)                                                      gCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTgg                                                                           >  2:746031/1‑139 (MQ=255)                                                          gACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGt                                                                       >  1:922382/1‑139 (MQ=255)                                                           aCCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGtt                                                                      >  1:443273/1‑139 (MQ=255)                                                                                    gATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTgg                                                                                             >  2:186101/1‑91 (MQ=255)                                                                                    gATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTgg                                                                                             <  1:186101/91‑1 (MQ=255)                                                                                      ttACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 >  2:801473/1‑85 (MQ=255)                                                                                      ttACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATc                                                                                                 <  1:801473/85‑1 (MQ=255)                                                                                      ttACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCAc                                           >  1:827738/1‑139 (MQ=255)                                                                                         cgacagCACCTGGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACcgc                                        >  2:539673/6‑139 (MQ=255)                                                                                          gTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACcgcg                                       <  2:298535/139‑1 (MQ=255)                                                                                              gCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGa                                   >  1:403018/1‑139 (MQ=255)                                                                                                   ttGTTCACTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTg                              >  1:737961/1‑139 (MQ=255)                                                                                                         aCTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGaa                        <  1:307917/139‑1 (MQ=255)                                                                                                         aCTAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGaa                        <  2:737961/139‑1 (MQ=255)                                                                                                           tAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACg                      >  1:431347/1‑139 (MQ=255)                                                                                                           tAACCTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACg                      <  2:431347/139‑1 (MQ=255)                                                                                                              ccTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                      <  1:699087/104‑1 (MQ=255)                                                                                                              ccTGCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                      >  2:699087/1‑104 (MQ=255)                                                                                                                 gCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGc                                                           >  2:749465/1‑96 (MQ=255)                                                                                                                 gCCGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGc                                                           <  1:749465/96‑1 (MQ=255)                                                                                                                  ccGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACa                                                                                                          <  1:76322/48‑1 (MQ=255)                                                                                                                  ccGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACa                                                                                                          >  2:76322/1‑48 (MQ=255)                                                                                                                  ccGTATATCATCGAGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTgg                                                        >  1:678233/1‑98 (MQ=255)                                                                                                                  ccGTATATCATCGAGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTgg                                                        <  2:678233/98‑1 (MQ=255)                                                                                                                   cGTATATCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTAc              >  1:656064/1‑139 (MQ=255)                                                                                                                     tataTCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                            >  2:482804/1‑59 (MQ=255)                                                                                                                     tataTCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                            <  1:482804/59‑1 (MQ=255)                                                                                                                       tatCATCGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGaa          <  2:403018/139‑1 (MQ=255)                                                                                                                            tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                            >  1:662808/1‑52 (MQ=255)                                                                                                                            tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGt                                                                                            <  2:662808/52‑1 (MQ=255)                                                                                                                            tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                      >  2:371499/1‑90 (MQ=255)                                                                                                                            tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGgcg                                                      <  1:371499/90‑1 (MQ=255)                                                                                                                            tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACggg     >  1:108232/1‑139 (MQ=255)                                                                                                                            tcGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACggg     >  2:239109/1‑139 (MQ=255)                                                                                                                             cGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAg                            >  1:272038/1‑115 (MQ=255)                                                                                                                             cGGGTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAg                            <  2:272038/115‑1 (MQ=255)                                                                                                                               ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAAt                                                                                                        <  1:53421/37‑1 (MQ=255)                                                                                                                               ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAAt                                                                                                        >  2:53421/1‑37 (MQ=255)                                                                                                                               ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                      <  1:31289/39‑1 (MQ=255)                                                                                                                               ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATgg                                                                                                      >  2:31289/1‑39 (MQ=255)                                                                                                                               ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTa                                                                                          <  2:96588/51‑1 (MQ=255)                                                                                                                               ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTa                                                                                          >  1:96588/1‑51 (MQ=255)                                                                                                                               ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTgg                                                        <  2:503713/85‑1 (MQ=255)                                                                                                                               ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTgg                                                        >  1:503713/1‑85 (MQ=255)                                                                                                                               ggTAACCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGGTaa  >  2:813127/1‑139 (MQ=255)                                                                                                                                   |                                                                                                                                       TGACGCTGTCGTTTATTCCGAAAATCATCGCCGTATTTATCGCCATTATTATTGCCGGACCGTGGATGCTCAATCTGTTGCTGGATTACGTCCGCACCTTGTTCACTAACCTGCCGTATATCATCGGGTAGCCGTACTATGTTGCAGGTGACAAGCGAACAATGGCTATCCTGGTTAAACCTGTACTTCTGGCCGTTACTGCGCGTGCTGGCGCTGATCTCCACCGCGCCGATTCTGAGCGAACGCAGCGTACCGAAACGGGTAA  >  NC_000913/2022755‑2023019

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑